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Consider the following: "lone colony ship annoyance"
When combat occurs during enemy turn processing you are given the option to resolve in tactical or strategic mode. The problem is: you have absolutely no means to decide if your personal intervention might be beneficial. And since there is nothing more boring than seeing my mighty fleet blast a colony ship into space dust I normally choose to resolve in strategic mode anyway.

The only effect of your "choice" is that turn processing can not run unattended. You always have to stay in front of the screen, ready to click strategic->32x->start->Close